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Abstract Details
Activity Number:
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480
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Type:
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Contributed
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Date/Time:
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Wednesday, August 3, 2011 : 8:30 AM to 10:20 AM
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Sponsor:
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Biometrics Section
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Abstract - #302408 |
Title:
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Ultrasensitive Detection of Rare Variants in Admixture Populations Using Next-Generation Sequencing
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Author(s):
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Patrick Flaherty*+ and Georges Natsoulis and Omkar Muralidharan and Nancy Zhang and Jason Buenrostro and John Bell and Mark Winters and Mark Holodniy and Hanlee Ji
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Companies:
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Stanford University and Stanford University and Stanford University and Stanford University and Stanford University and Stanford University and Stanford University and VA Palo Alto Healthcare System and Stanford University
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Address:
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318 Campus Dr. W330, Stanford, CA, 94027,
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Keywords:
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next-generation sequencing ;
genomics ;
viral ;
hierarchical model
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Abstract:
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The viral load of an infected individual often contains a population of quasi-species each with a different genome. A rare resistant variant may survive lethal selection and proliferate causing prolonged illness. We describe improvements to both statistical and experimental methodology using next-generation sequencing to identify rare mutational events. We develop a hierarchical model to account for over-dispersion in the observed data. We show a theoretical power analysis involving detection limit improvements due to both sample preparation precision and read depth. We present results on the detection of a quasi-species present at a prevalence of 0.1% with high sensitivity (100%) and specificity (99%) using an experimentally defined admixed population of synthesized DNA.
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Authors who are presenting talks have a * after their name.
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